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Commits on Mar 18, 2024

• Resolve conflicts in test files

  kishwarshafin

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• Update all case studies for v1.6.1 release

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  kishwarshafin

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• Resolve conflict in deeptrio metrics

  

  pichuan

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  kishwarshafin

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• Resolve conflict in metrics

  

  pichuan

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  kishwarshafin

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• Update metrics page with 1.6.1 github link

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  kishwarshafin

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• Updates libssw from 1.2.4 to 1.2.5.

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  lucasbrambrink

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  kishwarshafin

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• Fix CUDA initialization error for call_variants

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  kishwarshafin

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• Fix call_variants

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  kishwarshafin

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• Move creating activation models codes out of the data iterating loop, which will fix the program being stuck.

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  Yuchen-95

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  kishwarshafin

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• Resolve a trivial conflict in deepvariant.proto

  

  pichuan

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  kishwarshafin

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• Add activation layers outputs to CVO, according to the --activation_layers flag input.

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  Yuchen-95

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  kishwarshafin

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• Update call_variants to pass in all the FLAGS, and add a unit test for include_debug_info.

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  pichuan

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  kishwarshafin

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• Add end to end tests for call_variants.py

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  jmier2

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  kishwarshafin

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• Add a flag for later optionally adding encoded activation layers outputs to CVO.

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  Yuchen-95

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  kishwarshafin

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Commits on Dec 9, 2023

• Update problem_report.md

  pichuan

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Commits on Nov 2, 2023

• Update readme to fix link.

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  kishwarshafin

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  copybara-github

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• Update VG documentation.

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  pichuan

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Commits on Nov 1, 2023

• Add links to README.

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  pichuan

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  copybara-github

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Commits on Oct 25, 2023

• A test with mixed exclude_regions

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  pichuan

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  copybara-github

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• Update code to work for new pandas version.

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  pichuan

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  copybara-github

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Commits on Oct 23, 2023

• Add logic to run_deepvariant to control postprocess cpus

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  kishwarshafin

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Commits on Oct 21, 2023

• Fix a typo in inference_deepsomatic.sh

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  pichuan

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  copybara-github

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Commits on Oct 20, 2023

• Update FAQ files

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  kishwarshafin

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  copybara-github

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• Private change

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  kishwarshafin

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  copybara-github

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• Rename.

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  pichuan

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• Add PacBio to inference_deepsomatic.sh

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  pichuan

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Commits on Oct 19, 2023

• Implementation of MergeReads method and unit tests.

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  akolesnikov

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  copybara-github

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• Remove the mention of the deprecated flag.

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  pichuan

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  copybara-github

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• Add inference_deepsomatic.sh

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  pichuan

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  copybara-github

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• Rename.

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  pichuan

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• Update run_deepsomatic

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  kishwarshafin

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• DeepSomatic dockerfile setup

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  kishwarshafin

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  copybara-github

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• Rename

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  pichuan

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• Add reference to write_somatic in dispatcher class.

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  kishwarshafin

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  copybara-github

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Commits on Oct 18, 2023

• Update readme doc

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  kishwarshafin

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  copybara-github

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